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    "<h1><center> Clean and Organize data for the I-SPY1 Clinical Trial</center></h1>"

   ]

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       "    <tr style=\"text-align: right;\">\n",

       "      <th></th>\n",

       "      <th>age</th>\n",

       "      <th>White</th>\n",

       "      <th>ER+</th>\n",

       "      <th>PR+</th>\n",

       "      <th>HR+</th>\n",

       "      <th>Bilateral</th>\n",

       "      <th>Right_Breast</th>\n",

       "      <th>MRI_LD_Baseline</th>\n",

       "      <th>MRI_LD_1_3dAC</th>\n",

       "      <th>MRI_LD_Int_Reg</th>\n",

       "      <th>MRI_LD_PreSurg</th>\n",

       "      <th>Alive</th>\n",

       "      <th>Survival_length</th>\n",

       "      <th>RFS</th>\n",

       "      <th>RFS_code</th>\n",

       "      <th>PCR</th>\n",

       "      <th>RCB</th>\n",

       "    </tr>\n",

       "    <tr>\n",

       "      <th>SUBJECTID</th>\n",

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       "      <th>1001</th>\n",

       "      <td>38.73</td>\n",

       "      <td>Yes</td>\n",

       "      <td>Yes</td>\n",

       "      <td>No</td>\n",

       "      <td>Yes</td>\n",

       "      <td>No</td>\n",

       "      <td>No</td>\n",

       "      <td>88.0</td>\n",

       "      <td>78.0</td>\n",

       "      <td>30.0</td>\n",

       "      <td>14.0</td>\n",

       "      <td>No</td>\n",

       "      <td>1264</td>\n",

       "      <td>751</td>\n",

       "      <td>1</td>\n",

       "      <td>No</td>\n",

       "      <td>2.0</td>\n",

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       "    <tr>\n",

       "      <th>1002</th>\n",

       "      <td>37.79</td>\n",

       "      <td>Yes</td>\n",

       "      <td>Yes</td>\n",

       "      <td>Yes</td>\n",

       "      <td>Yes</td>\n",

       "      <td>No</td>\n",

       "      <td>Yes</td>\n",

       "      <td>29.0</td>\n",

       "      <td>26.0</td>\n",

       "      <td>66.0</td>\n",

       "      <td>16.0</td>\n",

       "      <td>No</td>\n",

       "      <td>1155</td>\n",

       "      <td>1043</td>\n",

       "      <td>1</td>\n",

       "      <td>No</td>\n",

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       "             age White  ER+  PR+  HR+ Bilateral Right_Breast  MRI_LD_Baseline  \\\n",

       "SUBJECTID                                                                       \n",

       "1001       38.73   Yes  Yes   No  Yes        No           No             88.0   \n",

       "1002       37.79   Yes  Yes  Yes  Yes        No          Yes             29.0   \n",

       "\n",

       "           MRI_LD_1_3dAC  MRI_LD_Int_Reg  MRI_LD_PreSurg Alive  \\\n",

       "SUBJECTID                                                        \n",

       "1001                78.0            30.0            14.0    No   \n",

       "1002                26.0            66.0            16.0    No   \n",

       "\n",

       "           Survival_length   RFS  RFS_code PCR  RCB  \n",

       "SUBJECTID                                            \n",

       "1001                  1264   751         1  No  2.0  \n",

       "1002                  1155  1043         1  No  3.0  "

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   ],

   "source": [

    "# load module by Julio and pandas\n",

    "from ispy1 import clean_data\n",

    "import pandas as pd\n",

    "\n",

    "file = './data/I-SPY_1_All_Patient_Clinical_and_Outcome_Data.xlsx'\n",

    "df = clean_data.clean_my_data(file)\n",

    "df.head(2)\n",

    "\n",

    "# save clean data in new  csv file\n",

    "df.to_csv('./data/I-SPY_1_clean_data.csv')\n",

    "\n",

    "df.head(2)"

   ]

  }

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